HsaINT0147462 @ hg19
Intron Retention
Gene
ENSG00000092421 | SEMA6A
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:HGNC Symbol;Acc:10738]
Coordinates
chr5:115831947-115833083:-
Coord C1 exon
chr5:115833023-115833083
Coord A exon
chr5:115832010-115833022
Coord C2 exon
chr5:115831947-115832009
Length
1013 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTCTTTCTTGATCCCTGCAGAAA
3' ss Score
9.54
Exon sequences
Seq C1 exon
GGACCATATTTATACTGTTGATATAGACACATCACACACGGAAGAAATTTATTGTAGCAAA
Seq A exon
GTAAGTTGTTTTAAAACTATATTTGTAAAATGAAGGACCTTTGGATAGTTCTTGAACAGAATATGTATTTTAAGTGCATTAAGATGATGTAGCTAATCATAATTTAGAGATGCCAACATGCATTTTGTGAAATCCTAATTAGGGAATAGGTTAGGATTTGATACATGTTCAGAAACAGTTATGTACTTCATATTTTATTCATCAAATATATGTGTACATATACATTTTGAAGTTTTACATAATTTCTACATTTCTTTTATAAAAATATTGCCTCATTTATCCAGGAAAACATCAGTTTTCATAAGTAAAATTTTGTTCCACAAATGTATTCTACAAAGGTTTCAATGTTATATTTCCATGTCTTGCAGTATTAAGTTTGATTTGACTGCTGTGGTTCAGGAACTTGATCGTTACCCATTTCAGACAGACATAAAGTATAACCTAAGCTTTCCTCATAACTCCACATGGGGATATTTTAGTTAATAAAACCTGTGCCATAGGAGTAGAAGATCCCTTCAGTCCATTAATCTATGTGAAGGAGTATAACCTGAATTAAATCTTTGTCCACCTAGAGTGAATGTCCTCTTTATGTTTAAGAAAATGACTTCTGTATTTTAAGAAAAAAGCCTTCTTTATAAAAATTGATTTATCAACTGAAAGGAAAGGGCAAGGACATATATTTTATCCAAATGAGCATAATTTGGCAAATTAATTTGGATAGTTTATGAAAAATTTCCACACTCTTGTTTATTCTTCTTTCTTTTCTCCTTCATCTTTATCTCAAACAGAAGAAGACCATTTTGTGGTTTAATGAATAGATAGGAGTTCAAAATTAAACGGACGTTTTCATCTGGAATCTTTTGTTGTTACGGTGAATTAATCATGGAGAAAGGGTGCAGAAAGCTTTCAATAAATATATGTTCAGCCTTTAGTCTCCCCAAGGGAACTCTTACTTCTAAAATCAAACGCAACAACCTCTGGGCTCTAATTGATTTCTTTCTTGATCCCTGCAG
Seq C2 exon
AAACTGACATGGAAATCTAGACAGGCCGATGTAGACACATGCAGAATGAAGGGAAAACATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000092421-SEMA6A:NM_020796:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(33.9=100)
A:
NA
C2:
PF0140314=Sema=FE(33.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)